Pla2g4d (phospholipase A2 group IVD) - Rat Genome Database

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Gene: Pla2g4d (phospholipase A2 group IVD) Rattus norvegicus
Analyze
Symbol: Pla2g4d
Name: phospholipase A2 group IVD
RGD ID: 1593372
Description: Predicted to enable calcium ion binding activity; calcium-dependent phospholipase A2 activity; and calcium-dependent phospholipid binding activity. Predicted to be involved in glycerophospholipid catabolic process. Predicted to be located in cytoplasm. Predicted to be active in cytosol. Orthologous to human PLA2G4D (phospholipase A2 group IVD); INTERACTS WITH 6-propyl-2-thiouracil; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cytosolic phospholipase A2 delta; LOC311342; LOC691905; phospholipase A2, group IVD; phospholipase A2, group IVD (cytosolic); similar to cytosolic phospholipase A2 delta
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83127,674,743 - 127,695,991 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3127,674,814 - 127,695,998 (-)EnsemblGRCr8
mRatBN7.23107,220,973 - 107,242,224 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3107,220,978 - 107,242,224 (-)EnsemblmRatBN7.2
Rnor_6.03112,040,827 - 112,061,847 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3112,041,533 - 112,061,796 (-)Ensemblrn6Rnor6.0
Rnor_5.03118,589,300 - 118,609,563 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43106,758,373 - 106,778,915 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3106,129,471 - 106,150,773 (-)NCBICelera
Cytogenetic Map3q35NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
cytosol  (IBA,IEA)
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14709560   PMID:15866882  


Genomics

Comparative Map Data
Pla2g4d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83127,674,743 - 127,695,991 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3127,674,814 - 127,695,998 (-)EnsemblGRCr8
mRatBN7.23107,220,973 - 107,242,224 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3107,220,978 - 107,242,224 (-)EnsemblmRatBN7.2
Rnor_6.03112,040,827 - 112,061,847 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3112,041,533 - 112,061,796 (-)Ensemblrn6Rnor6.0
Rnor_5.03118,589,300 - 118,609,563 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43106,758,373 - 106,778,915 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3106,129,471 - 106,150,773 (-)NCBICelera
Cytogenetic Map3q35NCBI
PLA2G4D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381542,067,009 - 42,094,562 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1542,067,009 - 42,094,562 (-)Ensemblhg38GRCh38
GRCh371542,359,207 - 42,386,760 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361540,147,173 - 40,174,044 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341540,146,498 - 40,151,368NCBI
Celera1519,127,581 - 19,154,452 (-)NCBICelera
Cytogenetic Map15q15.1NCBI
HuRef1519,207,893 - 19,235,242 (-)NCBIHuRef
CHM1_11542,478,319 - 42,505,190 (-)NCBICHM1_1
T2T-CHM13v2.01539,873,000 - 39,900,554 (-)NCBIT2T-CHM13v2.0
Pla2g4d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392120,096,347 - 120,119,678 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2120,096,076 - 120,119,678 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm382120,265,866 - 120,289,069 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2120,265,595 - 120,289,197 (-)Ensemblmm10GRCm38
MGSCv372120,091,605 - 120,114,805 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362119,957,310 - 119,980,510 (-)NCBIMGSCv36mm8
Celera2121,420,286 - 121,443,397 (-)NCBICelera
Cytogenetic Map2E5NCBI
cM Map260.31NCBI
Pla2g4d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554168,841,954 - 8,860,353 (-)Ensembl
ChiLan1.0NW_0049554168,841,645 - 8,860,381 (-)NCBIChiLan1.0ChiLan1.0
PLA2G4D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21631,311,381 - 31,331,038 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11535,462,638 - 35,482,296 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01521,021,875 - 21,048,848 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11539,182,100 - 39,208,996 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1539,182,100 - 39,208,996 (-)EnsemblpanPan2panpan1.1
PLA2G4D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1309,091,147 - 9,115,090 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl309,092,001 - 9,115,363 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha309,147,400 - 9,173,232 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0309,224,119 - 9,249,959 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl309,226,331 - 9,250,007 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1309,144,510 - 9,170,332 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0309,248,779 - 9,274,621 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0309,383,819 - 9,409,657 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pla2g4d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864087,537,755 - 87,561,169 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364715,386,762 - 5,409,174 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364715,386,762 - 5,409,165 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLA2G4D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1129,247,159 - 129,271,028 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11129,251,495 - 129,270,952 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21144,183,508 - 144,207,704 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLA2G4D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12640,895,718 - 40,923,092 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2640,897,660 - 40,922,031 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666048100,080,579 - 100,105,910 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pla2g4d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248049,238,057 - 9,256,503 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pla2g4d
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1598,404,825 - 98,425,631 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pla2g4d
164 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:139
Count of miRNA genes:111
Interacting mature miRNAs:119
Transcripts:ENSRNOT00000056258
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)396509147141509147Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)373592512136118980Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)358601291153936591Rat
1582216Bw65Body weight QTL 656.3body mass (VT:0001259)body weight (CMO:0000012)3122654702136118980Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)349872657138829559Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)3116582412136118980Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)385062224136118980Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)385062224136118980Rat
7387306Bw124Body weight QTL 1243.20.0003body mass (VT:0001259)body weight (CMO:0000012)3104545086149545086Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)381425008141509147Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)370845569136091483Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)393829559138829559Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)3112250810157250810Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3101255536134750886Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)396509147141509147Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)3117537367162537367Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3125116475170116475Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3110225882155225882Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)390755164141509147Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3122395989167395989Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)398651826167012663Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)3125814931139636791Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3110634702155634702Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)3116188400161188400Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
7 3 57 12 16 1 9 1 4 31 14 51 9 60 15 4 4

Sequence


Ensembl Acc Id: ENSRNOT00000056258   ⟹   ENSRNOP00000053100
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3127,674,814 - 127,695,998 (-)Ensembl
mRatBN7.2 Ensembl3107,220,978 - 107,242,224 (-)Ensembl
Rnor_6.0 Ensembl3112,041,533 - 112,061,796 (-)Ensembl
RefSeq Acc Id: XM_001080051   ⟹   XP_001080051
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83127,674,743 - 127,695,991 (-)NCBI
mRatBN7.23107,220,973 - 107,242,224 (-)NCBI
Rnor_6.03112,040,827 - 112,061,847 (-)NCBI
Rnor_5.03118,589,300 - 118,609,563 (-)NCBI
RGSC_v3.43106,758,373 - 106,778,915 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs XP_001080051 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000053100
  ENSRNOP00000053100.1
RefSeq Acc Id: XP_001080051   ⟸   XM_001080051
- UniProtKB: D3ZQH6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000053100   ⟸   ENSRNOT00000056258
Protein Domains
C2   PLA2c

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZQH6-F1-model_v2 AlphaFold D3ZQH6 1-825 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593372 AgrOrtholog
BioCyc Gene G2FUF-48180 BioCyc
Ensembl Genes ENSRNOG00000037231 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000056258 ENTREZGENE
  ENSRNOT00000056258.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/TrEMBL
  Cytosolic phospholipase A2 catalytic domain UniProtKB/TrEMBL
InterPro Acyl_Trfase/lysoPlipase UniProtKB/TrEMBL
  C2_Ca-dep UniProtKB/TrEMBL
  C2_cPLA2 UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  cPLA2_C2 UniProtKB/TrEMBL
  Lysophospholipase_cat_dom UniProtKB/TrEMBL
KEGG Report rno:691905 UniProtKB/TrEMBL
NCBI Gene 691905 ENTREZGENE
PANTHER CYTOSOLIC PHOSPHOLIPASE A2 UniProtKB/TrEMBL
  CYTOSOLIC PHOSPHOLIPASE A2 DELTA UniProtKB/TrEMBL
Pfam cPLA2_C2 UniProtKB/TrEMBL
  PF00168 UniProtKB/TrEMBL
  PLA2_B UniProtKB/TrEMBL
PhenoGen Pla2g4d PhenoGen
PROSITE PLA2C UniProtKB/TrEMBL
  PS50004 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000037231 RatGTEx
SMART PLAc UniProtKB/TrEMBL
  SM00239 UniProtKB/TrEMBL
Superfamily-SCOP Acyl_Trfase/lysoPlipase UniProtKB/TrEMBL
  SSF49562 UniProtKB/TrEMBL
UniProt D3ZQH6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Pla2g4d  phospholipase A2 group IVD  Pla2g4d  phospholipase A2, group IVD (cytosolic)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Pla2g4d  phospholipase A2, group IVD (cytosolic)  Pla2g4d  phospholipase A2, group IVD  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Pla2g4d  phospholipase A2, group IVD  LOC691905  similar to cytosolic phospholipase A2 delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691905  similar to cytosolic phospholipase A2 delta  RGD1305282_predicted  similar to phospholipase A2, group IVB (cytosolic) (predicted)  Data merged from RGD:1305282 1643240 APPROVED
2006-11-20 LOC691905  similar to cytosolic phospholipase A2 delta      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1305282_predicted  similar to phospholipase A2, group IVB (cytosolic) (predicted)  LOC311342_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC311342_predicted  similar to phospholipase A2, group IVB (cytosolic) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL